Locus 3610

Sequence ID	2L_DroMel_CAF1
Location	10,525,144 – 10,525,234
Length	90
Max. P	0.867433

overview

Window 0

Location	10,525,144 – 10,525,234
Length	90
Sequences	6
Columns	115
Reading direction	forward
Mean pairwise identity	76.34
Mean single sequence MFE	-36.18
Consensus MFE	-22.77
Energy contribution	-22.88
Covariance contribution	0.11
Combinations/Pair	1.22
Mean z-score	-1.66
Structure conservation index	0.63
SVM decision value	0.85
SVM RNA-class probability	0.867433
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10525144 90 + 22407834
AUGUGUGCCAUCUCUAGCUGCUCGGUUGACGUCG--GCGGUUUGUCGAGUUAAUGACUUUGGCAGCUGG-AGC---AGCGGCAGUGGAUGAUGGGU-------------------
.....((((.((((((((((((.(((((((.(((--((.....))))))))...))))..)))))))))-)).---)..)))).............------------------- ( -33.10)
>DroSec_CAF1 13495 87 + 1
---UGUCCCAUCCCUAGCUGCUCGGUUGACGUCG--GCGGUUUGUCGAGUUUAUGACUUUGGCAGCUGG-AGG---AGCGGCAGUGGAUGAUGGCU-------------------
---.(((.(((((((.(((((((.((.(((.(((--((.....)))))))).))..(((..(...)..)-)))---)))))))).)))))..))).------------------- ( -33.10)
>DroEre_CAF1 13832 91 + 1
GUGUGUCCCAUCUCUAGCUGCUCGGCUGACGUUG--GCGGUUUGUCGAGUUAAUGACUUUGGCAGCUGGAAGG---AGCAGCAGUGGAUGAUGGCU-------------------
.......((((((((((((((((..((..(((((--.(((...((((......)))).))).)))).)..)))---))))))..)))).)))))..------------------- ( -32.00)
>DroYak_CAF1 13923 91 + 1
AUGAGUGCCAUCUCUAGUUGCUCGGUUGACGUUG--GCGGUUUGUCGAGUUAAUGACUUUGGCAGCUGGGAGG---AGCAGCAGUGGAUGAUGGCU-------------------
......(((((((((((((((((..((.(.((((--.(((...((((......)))).))).))))).))..)---))))))..)))).)))))).------------------- ( -33.40)
>DroAna_CAF1 13813 103 + 1
A----UACCAUCUCUAUCCGCAGUGCUGACGUUGACGCGGUUUGUCGAGUUAAUGACUUUGGCAGCUGAGCGGUUCGCCGGCAGUGGAUGAUGGCA--------UCGGAACAAGG
.----..(((((...((((((..(((..((((((((.(((....))).)))))))...)..)))((((.(((...))))))).)))))))))))..--------........... ( -35.30)
>DroPer_CAF1 14844 112 + 1
AUCCCUGCCAUCUCUGGCUGCUCUGCUGACGGCGACGCGGUUUGUCGAGUUAAUGACUUUGGCAGUCGAGAGG---AGCAGCAGUGGAUGAUGGCUCAGGGCUCUGGGCCCAGGA
...((((((((((((.((((((((.(((((..(((((.....))))).(((((.....))))).))).)).))---))))))...))).))))))...((((.....))))))). ( -50.20)
>consensus
AUGUGUGCCAUCUCUAGCUGCUCGGCUGACGUCG__GCGGUUUGUCGAGUUAAUGACUUUGGCAGCUGGGAGG___AGCAGCAGUGGAUGAUGGCU___________________
.......(((((((((((((((((((((.((......))....((((......)))).....))))))........))))))..)))).)))))..................... (-22.77 = -22.88 +   0.11)

alignment

secondary structure

dotplot

Window 1

Location	10,525,144 – 10,525,234
Length	90
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	76.34
Mean single sequence MFE	-26.10
Consensus MFE	-13.65
Energy contribution	-14.20
Covariance contribution	0.56
Combinations/Pair	1.16
Mean z-score	-1.74
Structure conservation index	0.52
SVM decision value	0.18
SVM RNA-class probability	0.619928
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10525144 90 - 22407834
-------------------ACCCAUCAUCCACUGCCGCU---GCU-CCAGCUGCCAAAGUCAUUAACUCGACAAACCGC--CGACGUCAACCGAGCAGCUAGAGAUGGCACACAU
-------------------.............(((((..---.((-(.((((((....(((........))).......--((........)).)))))).))).)))))..... ( -23.00)
>DroSec_CAF1 13495 87 - 1
-------------------AGCCAUCAUCCACUGCCGCU---CCU-CCAGCUGCCAAAGUCAUAAACUCGACAAACCGC--CGACGUCAACCGAGCAGCUAGGGAUGGGACA---
-------------------...............(((..---(((-..((((((....(((........))).......--((........)).)))))))))..)))....--- ( -20.30)
>DroEre_CAF1 13832 91 - 1
-------------------AGCCAUCAUCCACUGCUGCU---CCUUCCAGCUGCCAAAGUCAUUAACUCGACAAACCGC--CAACGUCAGCCGAGCAGCUAGAGAUGGGACACAC
-------------------..(((((.((....((((((---(......((((.....(((........)))....((.--...)).)))).)))))))..)))))))....... ( -24.30)
>DroYak_CAF1 13923 91 - 1
-------------------AGCCAUCAUCCACUGCUGCU---CCUCCCAGCUGCCAAAGUCAUUAACUCGACAAACCGC--CAACGUCAACCGAGCAACUAGAGAUGGCACUCAU
-------------------.((((((.((....(.((((---(......(((.....))).........(((.......--....)))....))))).)..))))))))...... ( -19.80)
>DroAna_CAF1 13813 103 - 1
CCUUGUUCCGA--------UGCCAUCAUCCACUGCCGGCGAACCGCUCAGCUGCCAAAGUCAUUAACUCGACAAACCGCGUCAACGUCAGCACUGCGGAUAGAGAUGGUA----U
..........(--------(((((((..((......))....((((...((((.....(((........))).....(((....)))))))...)))).....)))))))----) ( -27.00)
>DroPer_CAF1 14844 112 - 1
UCCUGGGCCCAGAGCCCUGAGCCAUCAUCCACUGCUGCU---CCUCUCGACUGCCAAAGUCAUUAACUCGACAAACCGCGUCGCCGUCAGCAGAGCAGCCAGAGAUGGCAGGGAU
((((((((.....))))...((((((.((....((((((---(..((.(((.((...(((.....))).(((.......))))).)))))..)))))))..)))))))).)))). ( -42.20)
>consensus
___________________AGCCAUCAUCCACUGCCGCU___CCUCCCAGCUGCCAAAGUCAUUAACUCGACAAACCGC__CAACGUCAACCGAGCAGCUAGAGAUGGCACACAU
.....................(((((.((....((((((..........(((.....))).........(((.............))).....))))))..)))))))....... (-13.65 = -14.20 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:50 2006